Strain identifier
BacDive ID: 18121
Type strain:
Species: Gemella morbillorum
Strain Designation: 2917 B
Strain history: CIP <- 1981, M. Sebald, Inst. Pasteur, Paris, France <- A.R. Prévot, Inst. Pasteur, Paris, France: strain 2917 B
NCBI tax ID(s): 29391 (species)
General
@ref: 8922
BacDive-ID: 18121
DSM-Number: 20572
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive, coccus-shaped
description: Gemella morbillorum 2917 B is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from lung abscess.
NCBI tax id
- NCBI tax id: 29391
- Matching level: species
strain history
@ref | history |
---|---|
8922 | <- ATCC <- L. Holdeman, VPI 5424 <- A. Prévot, 2917 B (Diplococcus morbillorum) |
67770 | DSM 20572 <-- ATCC 27824 <-- L. V. Holdeman VPI 5424 <-- A. R. Prévot 2917B. |
121140 | CIP <- 1981, M. Sebald, Inst. Pasteur, Paris, France <- A.R. Prévot, Inst. Pasteur, Paris, France: strain 2917 B |
doi: 10.13145/bacdive18121.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Caryophanales
- family: Gemellaceae
- genus: Gemella
- species: Gemella morbillorum
- full scientific name: Gemella morbillorum (Prévot 1933) Kilpper-Bälz and Schleifer 1988
synonyms
@ref synonym 20215 Streptococcus morbillorum 20215 Diplococcus morbillorum 20215 Peptococcus morbillorum
@ref: 8922
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Bacillales
family: Caryophanales, not assigned to family
genus: Gemella
species: Gemella morbillorum
full scientific name: Gemella morbillorum (Prévot 1933) Kilpper-Bälz and Schleifer 1988
strain designation: 2917 B
type strain: yes
Morphology
cell morphology
- @ref: 121140
- gram stain: positive
- cell shape: coccus-shaped
- motility: no
colony morphology
- @ref: 121140
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8922 | PYG MEDIUM (MODIFIED) (DSMZ Medium 104) | yes | https://mediadive.dsmz.de/medium/104 | Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water |
38430 | MEDIUM 38 - for Streptococcus and Gemella Haemolysans | yes | Distilled water make up to (1000.000 ml);Horse serum (200.000 ml);Glucose (10.000 g);Brain heart infusion agar (52.000 g) | |
8922 | COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) | yes | https://mediadive.dsmz.de/medium/693 | Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base |
121140 | CIP Medium 253 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=253 | |
121140 | CIP Medium 38 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=38 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8922 | positive | growth | 37 | mesophilic |
38430 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
121140 | positive | growth | 30-41 | |
121140 | no | growth | 10 | psychrophilic |
121140 | no | growth | 25 | mesophilic |
121140 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
8922 | anaerobe |
121140 | facultative anaerobe |
halophily
- @ref: 121140
- salt: NaCl
- growth: no
- tested relation: growth
- concentration: 6.5 %
murein
- @ref: 8922
- murein short key: A11.05
- type: A3alpha L-Lys-L-Ala2
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
121140 | hippurate | + | hydrolysis | 606565 |
121140 | nitrate | - | reduction | 17632 |
121140 | nitrite | - | reduction | 16301 |
68380 | urea | - | hydrolysis | 16199 |
68380 | arginine | - | hydrolysis | 29016 |
68380 | D-mannose | - | fermentation | 16024 |
68380 | raffinose | - | fermentation | 16634 |
68380 | L-glutamate | - | degradation | 29985 |
68380 | nitrate | - | reduction | 17632 |
68380 | tryptophan | - | energy source | 27897 |
68381 | arginine | - | hydrolysis | 29016 |
68381 | D-ribose | - | builds acid from | 16988 |
68381 | D-mannitol | - | builds acid from | 16899 |
68381 | sorbitol | - | builds acid from | 30911 |
68381 | lactose | - | builds acid from | 17716 |
68381 | trehalose | - | builds acid from | 27082 |
68381 | raffinose | - | builds acid from | 16634 |
68381 | sucrose | + | builds acid from | 17992 |
68381 | L-arabinose | - | builds acid from | 30849 |
68381 | D-arabitol | - | builds acid from | 18333 |
68381 | alpha-cyclodextrin | - | builds acid from | 40585 |
68381 | hippurate | - | hydrolysis | 606565 |
68381 | glycogen | - | builds acid from | 28087 |
68381 | pullulan | - | builds acid from | 27941 |
68381 | maltose | + | builds acid from | 17306 |
68381 | melibiose | - | builds acid from | 28053 |
68381 | melezitose | - | builds acid from | 6731 |
68381 | methyl beta-D-glucopyranoside | - | builds acid from | 320055 |
68381 | D-tagatose | - | builds acid from | 16443 |
68381 | urea | - | hydrolysis | 16199 |
metabolite production
@ref | Chebi-ID | metabolite | production |
---|---|---|---|
68380 | 35581 | indole | no |
68381 | 15688 | acetoin | no |
metabolite tests
@ref | Chebi-ID | metabolite | voges-proskauer-test | indole test |
---|---|---|---|---|
68381 | 15688 | acetoin | - | |
68380 | 35581 | indole | - | |
121140 | 15688 | acetoin | - |
enzymes
@ref | value | activity | ec |
---|---|---|---|
68381 | urease | - | 3.5.1.5 |
68381 | beta-mannosidase | - | 3.2.1.25 |
68381 | glycyl tryptophan arylamidase | - | |
68381 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68381 | beta-galactosidase | - | 3.2.1.23 |
68381 | Alanyl-Phenylalanyl-Proline arylamidase | + | |
68381 | alkaline phosphatase | - | 3.1.3.1 |
68381 | alpha-galactosidase | - | 3.2.1.22 |
68381 | beta-glucuronidase | - | 3.2.1.31 |
68381 | beta-glucosidase | - | 3.2.1.21 |
68381 | arginine dihydrolase | - | 3.5.3.6 |
68380 | serine arylamidase | - | |
68380 | glutamyl-glutamate arylamidase | - | |
68380 | histidine arylamidase | + | |
68380 | glycin arylamidase | + | |
68380 | alanine arylamidase | + | 3.4.11.2 |
68380 | tyrosine arylamidase | - | |
68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68380 | phenylalanine arylamidase | - | |
68380 | leucyl glycin arylamidase | + | 3.4.11.1 |
68380 | proline-arylamidase | + | 3.4.11.5 |
68380 | L-arginine arylamidase | - | |
68380 | alkaline phosphatase | - | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | - | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68380 | beta-glucuronidase | - | 3.2.1.31 |
68380 | alpha-arabinosidase | - | 3.2.1.55 |
68380 | beta-glucosidase | - | 3.2.1.21 |
68380 | alpha-glucosidase | - | 3.2.1.20 |
68380 | beta-Galactosidase 6-phosphate | - | |
68380 | beta-galactosidase | - | 3.2.1.23 |
68380 | alpha-galactosidase | - | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
121140 | oxidase | - | |
121140 | beta-galactosidase | - | 3.2.1.23 |
121140 | alcohol dehydrogenase | - | 1.1.1.1 |
121140 | catalase | - | 1.11.1.6 |
121140 | gamma-glutamyltransferase | - | 2.3.2.2 |
121140 | lysine decarboxylase | - | 4.1.1.18 |
121140 | ornithine decarboxylase | - | 4.1.1.17 |
68382 | alkaline phosphatase | - | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | + | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121140 | - | - | + | + | - | + | - | - | - | + | + | + | - | - | - | + | - | - | - | - |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8922 | - | - | - | - | + | + | + | - | - | - | + | + | + | + | - | + | - | - | - | - | - | - | + | - | + | + | + | + | - | - | - | - | + | - | - | - | - | - | - | + | - | - | + | - | - | - | - | - | - | - |
121140 | - | - | - | - | - | - | - | - | - | - | +/- | - | +/- | - | - | - | - | - | - | - | - | +/- | - | - | - | - | - | +/- | - | - | +/- | - | - | - | - | + | +/- | - | - | +/- | - | - | - | - | - | - | - | - | +/- |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8922 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | - | +/- | - | - | + | + | + | - | - |
API rID32STR
@ref | ADH Arg | beta GLU | beta GAR | beta GUR | alpha GAL | PAL | RIB | MAN | SOR | LAC | TRE | RAF | SAC | LARA | DARL | CDEX | VP | APPA | beta GAL | PyrA | beta NAG | GTA | HIP | GLYG | PUL | MAL | MEL | MLZ | Mbeta DG | TAG | beta MAN | URE |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8922 | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | +/- | - | - | - | - | - | + | - | - | - | - | - | - |
8922 | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | + | - | - | - | - | - | + | - | - | - | - | - | - |
8922 | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | + | - | + | - | - | - | - | - | + | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
8922 | lung abscess |
67770 | Lung abscess |
121140 | Lung abscess |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host Body-Site | #Oral cavity and airways | #Lung |
#Host Body-Site | #Other | #Abscess |
#Infection | #Patient |
taxonmaps
- @ref: 69479
- File name: preview.99_2849.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_238;96_1510;97_1802;98_2205;99_2849&stattab=map
- Last taxonomy: Gemella morbillorum subclade
- 16S sequence: NR_025904
- Sequence Identity:
- Total samples: 12902
- soil counts: 142
- aquatic counts: 233
- animal counts: 12420
- plant counts: 107
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
8922 | 2 | Risk group (German classification) |
121140 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Gemella morbillorum 16S ribosomal RNA sequence | L14327 | 1536 | ena | 29391 |
20218 | Gemella morbillorum strain CCUG 18164 16S-23S ribosomal RNA intergenic spacer, complete sequence | JQ012768 | 205 | ena | 29391 |
8922 | Gemella morbillorum strain 2917B 16S ribosomal RNA, partial sequence | NR_025904 | 1536 | nuccore | 29391 |
67770 | Gemella morbillorum gene for 16S ribosomal RNA, partial sequence, strain: JCM 12968 | LC096237 | 1495 | ena | 29391 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Gemella morbillorum NCTC11323 | GCA_900476045 | complete | ncbi | 29391 |
66792 | Gemella morbillorum strain FDAARGOS_1501 | 29391.35 | complete | patric | 29391 |
66792 | Gemella morbillorum strain NCTC11323 | 29391.4 | complete | patric | 29391 |
66792 | Gemella morbillorum NCTC 11323 | 2808606651 | complete | img | 29391 |
66792 | Gemella morbillorum strain FDAARGOS_1501 | 29391.36 | complete | patric | 29391 |
66792 | Gemella morbillorum strain FDAARGOS_1501 | 29391.38 | complete | patric | 29391 |
66792 | Gemella morbillorum strain FDAARGOS_1501 | 29391.37 | complete | patric | 29391 |
GC content
@ref | GC-content | method |
---|---|---|
8922 | 30.0 | |
67770 | 30 | thermal denaturation, midpoint method (Tm) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | no | 97.106 | no |
gram-positive | yes | 94.16 | no |
anaerobic | no | 69.796 | yes |
aerobic | no | 95.695 | yes |
halophile | yes | 86.557 | no |
spore-forming | no | 90.032 | no |
thermophile | no | 99.637 | yes |
glucose-util | yes | 83.958 | no |
motile | no | 95.244 | no |
glucose-ferment | yes | 80.114 | no |
External links
@ref: 8922
culture collection no.: DSM 20572, ATCC 27824, JCM 12968, VPI 5424, CCUG 15561, CCUG 18164, CECT 991, CIP 81.10, LMG 18985, NCDO 2228, NCIMB 702228, NCTC 11323
straininfo link
- @ref: 87109
- straininfo: 12949
literature
- topic: Phylogeny
- Pubmed-ID: 24664577
- title: Gemella parahaemolysans sp. nov. and Gemella taiwanensis sp. nov., isolated from human clinical specimens.
- authors: Hung WC, Chen HJ, Tsai JC, Tseng SP, Lee TF, Hsueh PR, Shieh WY, Teng LJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.052795-0
- year: 2014
- mesh: Aged, Aged, 80 and over, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Female, Gemella/*classification/genetics/isolation & purification, Genes, Bacterial, Humans, Male, Middle Aged, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan
- topic2: Pathogenicity
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8922 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20572) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20572 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
38430 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/11168 | ||||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68380 | Automatically annotated from API rID32A | |||||
68381 | Automatically annotated from API rID32STR | |||||
68382 | Automatically annotated from API zym | |||||
69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
87109 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID12949.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121140 | Curators of the CIP | Collection of Institut Pasteur (CIP 81.10) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2081.10 |